Researcher profile

Christian Desrosiers

Christian Desrosiers contributes to research discovery and scholarly infrastructure.

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Published work

11 published item(s)

preprint2026arXiv

Exploring Entropy-based Active Learning for Fair Brain Segmentation

Active learning (AL) has emerged as a crucial strategy for reducing the prohibitive costs associated with medical image segmentation. However, standard uncertainty-based AL methods typically focus on maximizing performance metrics, ignoring performance disparities or fairness across groups with sensitive attributes. While fair active learning has been explored in classification tasks, its intersection with medical image segmentation remains unaddressed. In this work, we introduced a fairness-aware active learning framework with a Weighted Entropy selection strategy that modulates uncertainty based on current group-specific performance estimates on the labeled set. To decouple true epistemic uncertainty from anatomical volume variances, we further utilized a masked, scaled entropy restricted to the region of interest. The framework was evaluated on synthetic T1-weighted brain MRIs with controlled left caudate bias in both strong and weak bias settings. A 3D U-Net was trained to segment the left caudate under several AL strategies, starting from both demographically balanced and strongly imbalanced initial labeled sets. Experiments demonstrated that our method markedly reduces performance disparities between groups compared to random sampling and standard uncertainty sampling. By prioritizing poorly segmented subgroups during the AL cycles, our method consistently achieved the highest equity-scaled performance and reduced the disparity metric by 75% (strong bias) and 86% (weak bias) relative to standard entropy at the final budget. Overall, this work is among the first studies on fair AL for medical image segmentation, offering an efficient strategy to train more equitable models in resource-constrained environments.

preprint2026arXiv

Histopath-C: Towards Realistic Domain Shifts for Histopathology Vision-Language Adaptation

Medical Vision-language models (VLMs) have shown remarkable performances in various medical imaging domains such as histo\-pathology by leveraging pre-trained, contrastive models that exploit visual and textual information. However, histopathology images may exhibit severe domain shifts, such as staining, contamination, blurring, and noise, which may severely degrade the VLM's downstream performance. In this work, we introduce Histopath-C, a new benchmark with realistic synthetic corruptions designed to mimic real-world distribution shifts observed in digital histopathology. Our framework dynamically applies corruptions to any available dataset and evaluates Test-Time Adaptation (TTA) mechanisms on the fly. We then propose LATTE, a transductive, low-rank adaptation strategy that exploits multiple text templates, mitigating the sensitivity of histopathology VLMs to diverse text inputs. Our approach outperforms state-of-the-art TTA methods originally designed for natural images across a breadth of histopathology datasets, demonstrating the effectiveness of our proposed design for robust adaptation in histopathology images. Code and data are available at https://github.com/Mehrdad-Noori/Histopath-C.

preprint2023arXiv

TAAL: Test-time Augmentation for Active Learning in Medical Image Segmentation

Deep learning methods typically depend on the availability of labeled data, which is expensive and time-consuming to obtain. Active learning addresses such effort by prioritizing which samples are best to annotate in order to maximize the performance of the task model. While frameworks for active learning have been widely explored in the context of classification of natural images, they have been only sparsely used in medical image segmentation. The challenge resides in obtaining an uncertainty measure that reveals the best candidate data for annotation. This paper proposes Test-time Augmentation for Active Learning (TAAL), a novel semi-supervised active learning approach for segmentation that exploits the uncertainty information offered by data transformations. Our method applies cross-augmentation consistency during training and inference to both improve model learning in a semi-supervised fashion and identify the most relevant unlabeled samples to annotate next. In addition, our consistency loss uses a modified version of the JSD to further improve model performance. By relying on data transformations rather than on external modules or simple heuristics typically used in uncertainty-based strategies, TAAL emerges as a simple, yet powerful task-agnostic semi-supervised active learning approach applicable to the medical domain. Our results on a publicly-available dataset of cardiac images show that TAAL outperforms existing baseline methods in both fully-supervised and semi-supervised settings. Our implementation is publicly available on https://github.com/melinphd/TAAL.

preprint2022arXiv

Boundary-aware Information Maximization for Self-supervised Medical Image Segmentation

Unsupervised pre-training has been proven as an effective approach to boost various downstream tasks given limited labeled data. Among various methods, contrastive learning learns a discriminative representation by constructing positive and negative pairs. However, it is not trivial to build reasonable pairs for a segmentation task in an unsupervised way. In this work, we propose a novel unsupervised pre-training framework that avoids the drawback of contrastive learning. Our framework consists of two principles: unsupervised over-segmentation as a pre-train task using mutual information maximization and boundary-aware preserving learning. Experimental results on two benchmark medical segmentation datasets reveal our method's effectiveness in improving segmentation performance when few annotated images are available.

preprint2022arXiv

Can autism be diagnosed with AI?

Radiomics with deep learning models have become popular in computer-aided diagnosis and have outperformed human experts on many clinical tasks. Specifically, radiomic models based on artificial intelligence (AI) are using medical data (i.e., images, molecular data, clinical variables, etc.) for predicting clinical tasks like Autism Spectrum Disorder (ASD). In this review, we summarized and discussed the radiomic techniques used for ASD analysis. Currently, the limited radiomic work of ASD is related to variation of morphological features of brain thickness that is different from texture analysis. These techniques are based on imaging shape features that can be used with predictive models for predicting ASD. This review explores the progress of ASD-based radiomics with a brief description of ASD and the current non-invasive technique used to classify between ASD and Healthy Control (HC) subjects. With AI, new radiomic models using the deep learning techniques will be also described. To consider the texture analysis with deep CNNs, more investigations are suggested to be integrated with additional validation steps on various MRI sites.

preprint2022arXiv

Deep Radiomic Analysis for Predicting Coronavirus Disease 2019 in Computerized Tomography and X-ray Images

This paper proposes to encode the distribution of features learned from a convolutional neural network using a Gaussian Mixture Model. These parametric features, called GMM-CNN, are derived from chest computed tomography and X-ray scans of patients with Coronavirus Disease 2019. We use the proposed GMM-CNN features as input to a robust classifier based on random forests to differentiate between COVID-19 and other pneumonia cases. Our experiments assess the advantage of GMM-CNN features compared to standard CNN classification on test images. Using a random forest classifier (80\% samples for training; 20\% samples for testing), GMM-CNN features encoded with two mixture components provided a significantly better performance than standard CNN classification (p\,$<$\,0.05). Specifically, our method achieved an accuracy in the range of 96.00\,--\,96.70\% and an area under the ROC curve in the range of 99.29\,--\,99.45\%, with the best performance obtained by combining GMM-CNN features from both computed tomography and X-ray images. Our results suggest that the proposed GMM-CNN features could improve the prediction of COVID-19 in chest computed tomography and X-ray scans.

preprint2022arXiv

Deep radiomic signature with immune cell markers predicts the survival of glioma patients

Imaging biomarkers offer a non-invasive way to predict the response of immunotherapy prior to treatment. In this work, we propose a novel type of deep radiomic features (DRFs) computed from a convolutional neural network (CNN), which capture tumor characteristics related to immune cell markers and overall survival. Our study uses four MRI sequences (T1-weighted, T1-weighted post-contrast, T2-weighted and FLAIR) with corresponding immune cell markers of 151 patients with brain tumor. The proposed method extracts a total of 180 DRFs by aggregating the activation maps of a pre-trained 3D-CNN within labeled tumor regions of MRI scans. These features offer a compact, yet powerful representation of regional texture encoding tissue heterogeneity. A comprehensive set of experiments is performed to assess the relationship between the proposed DRFs and immune cell markers, and measure their association with overall survival. Results show a high correlation between DRFs and various markers, as well as significant differences between patients grouped based on these markers. Moreover, combining DRFs, clinical features and immune cell markers as input to a random forest classifier helps discriminate between short and long survival outcomes, with AUC of 72\% and p=2.36$\times$10$^{-5}$. These results demonstrate the usefulness of proposed DRFs as non-invasive biomarker for predicting treatment response in patients with brain tumors.

preprint2020arXiv

Adversarial normalization for multi domain image segmentation

Image normalization is a critical step in medical imaging. This step is often done on a per-dataset basis, preventing current segmentation algorithms from the full potential of exploiting jointly normalized information across multiple datasets. To solve this problem, we propose an adversarial normalization approach for image segmentation which learns common normalizing functions across multiple datasets while retaining image realism. The adversarial training provides an optimal normalizer that improves both the segmentation accuracy and the discrimination of unrealistic normalizing functions. Our contribution therefore leverages common imaging information from multiple domains. The optimality of our common normalizer is evaluated by combining brain images from both infants and adults. Results on the challenging iSEG and MRBrainS datasets reveal the potential of our adversarial normalization approach for segmentation, with Dice improvements of up to 59.6% over the baseline.

preprint2020arXiv

Graph Domain Adaptation for Alignment-Invariant Brain Surface Segmentation

The varying cortical geometry of the brain creates numerous challenges for its analysis. Recent developments have enabled learning surface data directly across multiple brain surfaces via graph convolutions on cortical data. However, current graph learning algorithms do fail when brain surface data are misaligned across subjects, thereby affecting their ability to deal with data from multiple domains. Adversarial training is widely used for domain adaptation to improve the segmentation performance across domains. In this paper, adversarial training is exploited to learn surface data across inconsistent graph alignments. This novel approach comprises a segmentator that uses a set of graph convolution layers to enable parcellation directly across brain surfaces in a source domain, and a discriminator that predicts a graph domain from segmentations. More precisely, the proposed adversarial network learns to generalize a parcellation across both, source and target domains. We demonstrate an 8% mean improvement in performance over a non-adversarial training strategy applied on multiple target domains extracted from MindBoggle, the largest publicly available manually-labeled brain surface dataset.

preprint2020arXiv

Manifold-Aware CycleGAN for High-Resolution Structural-to-DTI Synthesis

Unpaired image-to-image translation has been applied successfully to natural images but has received very little attention for manifold-valued data such as in diffusion tensor imaging (DTI). The non-Euclidean nature of DTI prevents current generative adversarial networks (GANs) from generating plausible images and has mainly limited their application to diffusion MRI scalar maps, such as fractional anisotropy (FA) or mean diffusivity (MD). Even if these scalar maps are clinically useful, they mostly ignore fiber orientations and therefore have limited applications for analyzing brain fibers. Here, we propose a manifold-aware CycleGAN that learns the generation of high-resolution DTI from unpaired T1w images. We formulate the objective as a Wasserstein distance minimization problem of data distributions on a Riemannian manifold of symmetric positive definite 3x3 matrices SPD(3), using adversarial and cycle-consistency losses. To ensure that the generated diffusion tensors lie on the SPD(3) manifold, we exploit the theoretical properties of the exponential and logarithm maps of the Log-Euclidean metric. We demonstrate that, unlike standard GANs, our method is able to generate realistic high-resolution DTI that can be used to compute diffusion-based metrics and potentially run fiber tractography algorithms. To evaluate our model&#39;s performance, we compute the cosine similarity between the generated tensors principal orientation and their ground-truth orientation, the mean squared error (MSE) of their derived FA values and the Log-Euclidean distance between the tensors. We demonstrate that our method produces 2.5 times better FA MSE than a standard CycleGAN and up to 30% better cosine similarity than a manifold-aware Wasserstein GAN while synthesizing sharp high-resolution DTI.

preprint2020arXiv

Out-of-Distribution Detection for Skin Lesion Images with Deep Isolation Forest

In this paper, we study the problem of out-of-distribution detection in skin disease images. Publicly available medical datasets normally have a limited number of lesion classes (e.g. HAM10000 has 8 lesion classes). However, there exists a few thousands of clinically identified diseases. Hence, it is important if lesions not in the training data can be differentiated. Toward this goal, we propose DeepIF, a non-parametric Isolation Forest based approach combined with deep convolutional networks. We conduct comprehensive experiments to compare our DeepIF with three baseline models. Results demonstrate state-of-the-art performance of our proposed approach on the task of detecting abnormal skin lesions.